Main
Emily Markowitz
https://emilyhmarkowitz.github.io/emilyhmarkowitz/ EmilyHMarkowitz@gmail.com | Emily.Markowitz@noaa.gov
Education
Selected Working Experience
R Markdown Reports
Alaska Fisheries Science Center Survey Data Reports
NA
NA
Alaska Fisheries Science Center Survey Data Reports
Reproducibly automate groundfish data reports for all surveys conducted by the AFSC and other technical memorandums and brief communications in R Markdown) (GitHub of Repository).
Fisheries Economics of the US Report
NA
NA
Fisheries Economics of the US Report
Manage the redevelopment and production of the Fisheries Economics of the US report. This is a national-level report that provides ten years of economic information, impacts, and analyses related to U.S. commercial and recreational fishing activities and fishing-related industries. I am working to contemporize this iconic report by writing reproducible code using R and RMarkdown, which produces several report outputs and JavaScript files for the interactive FEUS online tool. All of this work has gone into improving this nationally regarded report for the many who reference it and making the process of producing it more streamlined, reproducible, and efficient (Website).
R Packages
{NMFSReports}: Easily write NOAA reports and Tech Memos in R Markdown
NA
NA
{NMFSReports}: Easily write NOAA reports and Tech Memos in R Markdown
The NMFSReports Package has all of the basic architecture you need to create reproducible and repeatable NOAA Tech Memos in R Markdown! This approach is perfect for efficiently rolling out annual (or other regular) reports or reports with formulaic sections (the same chapter structure but for a different area or species). Scripts integrate table, figure, data, and bibliography management and design automation (Pkgdown Site for R Package).
{FishEconProdOutput}: Measuring Output for U.S. Commercial Fisheries From Theory to Practice
NA
NA
{FishEconProdOutput}: Measuring Output for U.S. Commercial Fisheries From Theory to Practice
This package provides guidelines on fishery productivity measurement at the individual fishery and aggregate sector levels. Attention is given to the constructions of output and total factor productivity based on available data and a bottom-up approach. Given that there is no nation-wide standard cost survey, we recommend starting with measuring TFP at the fishery level based on a translog gross output production possibility frontier using index number techniques. Special attention is given to measuring quality-adjusted physical capital inputs in the bottom-up approach (Pkgdown Site for R Package).
{GAPsurvey}: At-sea data management tools for RACE GAP surveys
NA
NA
{GAPsurvey}: At-sea data management tools for RACE GAP surveys
Catch, Length, and Specimen Data Import Program Instructions for at sea survey data for AFSC’s Gulf of Alaska and Bering Sea groundfish surveys (Pkgdown Site for R Package).
R Shiny Applications
AFSC Survey Data Map Visualizations
NA
NOAA Fisheries Commerical, Recreational, and Aquaculture Fisheries Economic Impact R Shiny Model
NA
NA
NOAA Fisheries Commerical, Recreational, and Aquaculture Fisheries Economic Impact R Shiny Model
I/O models are used to assess economic activity such as jobs, income, and sales generated by a given industry sector. This is currently used in industry statistics (such as in FEUS) and management applications (to determine how a change would effect the economy, such as in planning team meetings) (GitHub to R Package, GitHub to RShiny App).
NOAA Fisheries Marine Mammal Acoustic Thresholds
NA
NA
NOAA Fisheries Marine Mammal Acoustic Thresholds
NMFS has provided this Web Calculator as an optional tool to provide estimated effect distances (i.e., isopleths) where PTS onset thresholds may be exceeded. Results provided by this calculator do not represent the entirety of the comprehensive effects analysis, but rather serve as one tool to help evaluate the effects of a proposed action on marine mammal hearing and make findings required by NOAA’s various statutes. Input values are the responsibility of the individual user (GitHub Repository, Shiny App).
Research
Modeling Environmentally Driven Distribution Shifts for Two Demersal, Migratory Species
NA
NA
Modeling Environmentally Driven Distribution Shifts for Two Demersal, Migratory Species
Habitat suitability models (HSMs) of summer flounder (Paralichthys dentatus) and black sea bass (Centropristis striata) were created using the fishery-independent Northeast Fisheries Science Center (NEFSC) bottom trawl survey data in generalized additive models and cumulative distribution functions. These analyses were used to probabilistically link where different length classes of these fish would likely be across different environmental variables in spring and fall. These different environmental variables (surface and bottom temperature and salinity, depth, and bottom type) have similar influences on life history of these two demersal, migratory, and commercially important species. Then, the HSMs were used to illustrate how the population’s distribution changed over time by hindcasting over regional ocean modeling systems (ROMS). The ROMS used in this analysis was a 1 Day Averaged ROMS for the Northeast US Coastline from 1958-2020 (Grad School Website).
Visualizations
GAP Survey Temperature Maps
NA
NA
GAP Survey Temperature Maps
These scripts create the daily tempertaure and anomaly plots as NOAA Fisheries’ Alaska Fisheries Science Center conducts fisheries independant surveys in Alaska. The script pull temperature content from google drive and then push the maps to google drive for the communictions team (GitHub of R Package, Website where graphics are used!).
Mentorship, Outreach, and Teaching
Mentorship
Mentor. 2020 - 2021. Mentoring student investigating the purple-orange sea star and bivalve climate change-driven distribution changes in Alaska’s eastern Bering Sea. University of Washington School on the Environment Undergraduate Capstone Program.
Mentor and Volunteer. 2019 - 2020. Mentor to student participant and assisted with marketing. Blacks in Government, NOAA Chapter High School STEM Competition.
Peer Mentor. 2017. Helped troubleshoot seabird telemetry home range metrics and marine mammal bycatch modeling. School of Marine and Atmospheric Science, Stony Brook, NY.
Mentor. 2016. Mentored high school student assisting on assessment of Black Sea Bass (Centropristis striata) winter survival on the NE US shelf using MATLAB. Dr. Janet Nye, Quantitative Fisheries Ecology Laboratory, School of Marine and Atmospheric Science, Stony Brook, NY.
Outreach
Presenter. 2018. Hosted a table in the Smithsonian Natural History Museum Ocean Hall and engage with patrons about fisheries management (Post). Smithsonian National Museum of Natural History’s Expert is in Program.
Skype and Scientist Visiting Scientist. 2018 - Present. 30+ schools across the country K-12 (Post). Skype a Scientist Program.
Booth Presenter. 2018. Used the Science on Sphere (SOS) to share relationships between temperature, climate change, and changes in fish distributions (Post). USA Science and Engineering Festival.
Awards Judge. 2018. AFS Fish Habitat Section’s Best Student Paper. Atlantic City, NJ.
Assisting Researcher. 2016 - 2017. Stony Brook WISE (Women in Science and Engineering) working up some of the day’s data from our mini-study on blue crab temperature-dependent aerobic and anaerobic metabolism (Post). Stony Brook University, School of Marine and Atmospheric Science, Stony Brook, NY.
Plastic Pollution Outreach Program. 2014. Wrote, designed, and ran an outreach initiative teaching local elementary and middle school students about the global marine plastic pollution problem with Coastal Steward. Long Island, NY.
Teaching
Co-teacher and Co-organizer. 2021. Co-host and organize a 5-week entry-level R-Users workshop for 15 coworkers in the AFSC RACE groundfish assessment program. Developed a curriculum, lesson plans, and assignments (Lesson Website). NOAA Fisheries Alaska Fisheries Science Center, RACE Division.
Organizer. 2021 - Present. Co-wrote a proposal to bring Openscapes training workshops to AFSC. Training coming soon. NOAA Fisheries Alaska Fisheries Science Center, RACE Division.
Co-teacher and Co-organizer. 2020. Co-hosted a Workshop for Social Scientists for over 60 participants from across the country and across centers (Lesson Website). NOAA Fisheries OST Division of Economics and Social Analysis.
Teaching Assistant. 2015. Introduction to ArcGIS, taught by Professor Maria Brown. Worked with students to develop multi-map projects aimed at answering questions in hydrology, weather, climate change, and marine science for unique final projects in ArcGIS. Provided comments and assessments of presentations, quizzes, and homework assignments. Held office hours and provided computer assistance. School of Marine and Atmospheric Science, Sustainability Studies Program, Stony Brook, NY.
Research Interests
R Markdown Reports
Alaska Fisheries Science Center Survey Data Reports
Reproducibly automate groundfish data reports for all surveys conducted by the AFSC and other technical memorandums and brief communications in R Markdown) (GitHub of Repository).
Fisheries Economics of the US Report
Manage the redevelopment and production of the Fisheries Economics of the US report. This is a national-level report that provides ten years of economic information, impacts, and analyses related to U.S. commercial and recreational fishing activities and fishing-related industries. I am working to contemporize this iconic report by writing reproducible code using R and RMarkdown, which produces several report outputs and JavaScript files for the interactive FEUS online tool. All of this work has gone into improving this nationally regarded report for the many who reference it and making the process of producing it more streamlined, reproducible, and efficient (Website).
R Packages
{NMFSReports}: Easily write NOAA reports and Tech Memos in R Markdown
The NMFSReports Package has all of the basic architecture you need to create reproducible and repeatable NOAA Tech Memos in R Markdown! This approach is perfect for efficiently rolling out annual (or other regular) reports or reports with formulaic sections (the same chapter structure but for a different area or species). Scripts integrate table, figure, data, and bibliography management and design automation (Pkgdown Site for R Package).
{FishEconProdOutput}: Measuring Output for U.S. Commercial Fisheries From Theory to Practice
This package provides guidelines on fishery productivity measurement at the individual fishery and aggregate sector levels. Attention is given to the constructions of output and total factor productivity based on available data and a bottom-up approach. Given that there is no nation-wide standard cost survey, we recommend starting with measuring TFP at the fishery level based on a translog gross output production possibility frontier using index number techniques. Special attention is given to measuring quality-adjusted physical capital inputs in the bottom-up approach (Pkgdown Site for R Package).
{GAPsurvey}: At-sea data management tools for RACE GAP surveys
Catch, Length, and Specimen Data Import Program Instructions for at sea survey data for AFSC’s Gulf of Alaska and Bering Sea groundfish surveys (Pkgdown Site for R Package).
R Shiny Applications
AFSC Survey Data Map Visualizations
Code is still in development (GitHub Repository).
NOAA Fisheries Commerical, Recreational, and Aquaculture Fisheries Economic Impact R Shiny Model
I/O models are used to assess economic activity such as jobs, income, and sales generated by a given industry sector. This is currently used in industry statistics (such as in FEUS) and management applications (to determine how a change would effect the economy, such as in planning team meetings) (GitHub to R Package, GitHub to RShiny App).
NOAA Fisheries Marine Mammal Acoustic Thresholds
NMFS has provided this Web Calculator as an optional tool to provide estimated effect distances (i.e., isopleths) where PTS onset thresholds may be exceeded. Results provided by this calculator do not represent the entirety of the comprehensive effects analysis, but rather serve as one tool to help evaluate the effects of a proposed action on marine mammal hearing and make findings required by NOAA’s various statutes. Input values are the responsibility of the individual user (GitHub Repository, Shiny App).
Research
Modeling Environmentally Driven Distribution Shifts for Two Demersal, Migratory Species
Habitat suitability models (HSMs) of summer flounder (Paralichthys dentatus) and black sea bass (Centropristis striata) were created using the fishery-independent Northeast Fisheries Science Center (NEFSC) bottom trawl survey data in generalized additive models and cumulative distribution functions. These analyses were used to probabilistically link where different length classes of these fish would likely be across different environmental variables in spring and fall. These different environmental variables (surface and bottom temperature and salinity, depth, and bottom type) have similar influences on life history of these two demersal, migratory, and commercially important species. Then, the HSMs were used to illustrate how the population’s distribution changed over time by hindcasting over regional ocean modeling systems (ROMS). The ROMS used in this analysis was a 1 Day Averaged ROMS for the Northeast US Coastline from 1958-2020 (Grad School Website).
Visualizations
GAP Survey Temperature Maps
These scripts create the daily tempertaure and anomaly plots as NOAA Fisheries’ Alaska Fisheries Science Center conducts fisheries independant surveys in Alaska. The script pull temperature content from google drive and then push the maps to google drive for the communictions team (GitHub of R Package, Website where graphics are used!).
Scholarships, Fellowships, and Awards
Awards and Scholarships
Employee of the Quarter, Science and Technology Assessment and Monitoring Branch, 2019
CPAESS/UCAR Conference Travel Award, 2017
Student Travel Award, Southern New England Conference, 2017
Maze-Landeau Conference Travel Award, 2017
SoMAS Travel Award, 2017
Undergraduate Student Leadership Award, 2017
Evan R. Liblit Memorial Fund Scholarship for Waste Management, 2015
Fellowships
Climate Ambassador Program, American Fisheries Society, 2021 - 2023
Early Career Leadership Academy, American Meteorological Society, 2019
John A. Knauss Marine Policy Fellowship, New York Sea Grant, 2018
Waterfront Alliance Conference Scholar, 2017
Stony Brook University’s Mote Marine Lab Fellowship, 2015
Recent Publications and Presentations
Publications
In review
Wang, SL., Walden J., EH Markowitz. Measuring Output, Inputs, and Total Factor Productivity for the U.S. Fishery: A Proposal. DOC NOAA Tech. Memo. NMFS-F/SPO.
Rose, K., KK Holsman, JA Nye, EH Markowitz, et al. Advancing bioenergetics-based modeling will improve climate change projections for marine ecosystems. Marine Ecology Progress Series.
NMFS. SocioEconomic Aspects in Stock Assessments Workshop (SEASAW) Report. DOC NOAA Tech. Memo. U.S. DOC, NOAA Tech. Memo.
In prep
Markowitz, EH and JA Nye. Influence of environmental parameters on ontogenetic habitat selection for summer flounder and black sea bass on the Northeast (US) shelf large marine ecosystem.
NMFS. Eds. EH Markowitz and A Richardson. Fisheries Economics of the United States, 2017. DOC NOAA Tech. Memo.
NMFS. Eds. EH Markowitz and A Richardson. Fisheries Economics of the United States, 2018. DOC NOAA Tech. Memo.
2019
NMFS. Ed. EH Markowitz. Fisheries Economics of the United States, 2016 Addendum. DOC NOAA Tech. Memo. NMFS-F/SPO-187a, 243 p. (Link).
M. Srinivasan, SK Brown, EH Markowitz, M Soldevilla, E Patterson, K Forney, K Murray, E Ward, JM Ver Hoef, J Redfern, and T Eguchi (eds.). Proceedings of the 2nd National Protected Species Assessment Workshop. NOAA Tech. Memo. NMFS-F/SPO-198, 46 p. Memo. (Link).
2018
NMFS. Ed. EH Markowitz. Fisheries Economics of the United States, 2016. DOC NOAA Tech. Memo. U.S. DOC, NOAA Tech. Memo. NMFS-F/SPO-187a, 243 p. (Link).
Presentations
2021
Markowitz, EH. Reproducible Reports in R Markdown - Perspectives and {NMFSReports}. R Cascadia Conf., June 2021. Remote. (Recording, Slides).
Davis, C, EH Markowitz, and D Dishman. Different Strategies for Teaching Your Colleagues R: Lessons Learned and Recommendations. R Cascadia Conf., June 2021. Remote. (Recording).
2020
Markowitz, EH. Reproducible National-level Reports: Using Rmarkdown to Recode the Fisheries Economics of the United States Report.
Women in Statistics and Data Science Conf., September 2020. Remote.
American Fisheries Society, September 2020. Remote. (5 minute speed talk)
SatRDay Conference, March 2020. Washington, D.C. (Recording).
Markowitz, EH and S Steinback. Commercial and Recreational Fisheries Economic Impact Input/Output Model: Tool Update and Increasing Accessibility for Managers and Scientists.
American Fisheries Society, September 2020. Remote.
Socioeconomic Aspects in Stock Assessments Workshop (SEASAW), February 2020. New Orleans, LA.
Markowitz, EH and SL Wang. Measuring Output for U.S. Commercial Fisheries - From Theory to Practice. Fishery Productivity Workshop 2020: Measurement, Data Sources, and the Pattern of Growth, April 2020. Silver Spring, MD/Remote.
2019
Markowitz, EH. Science News Fatigue Battlefront. How do we do better? An observation-based discussion piece. NOAA DataComm Group, November 2019. Silver Spring, MD (60 minutes with demo and discussion).
2018
Markowitz, EH, AR Scholik-Schlomer, M Srinivasan, J Gedamke. Assessing the Impact of Underwater Sound on Marine Mammal Hearing in R Shiny: Increasing Accessibility of Tools for Managers and Stakeholders.
NOAA DataComm Group, May 2019. Silver Spring, MD (60 minutes with demo and discussion.)
NOAA NMFS OST Brown Bag series, October 2018. Silver Spring, MD (45 minutes with demo.)
International Marine Conservation Congress, June 2018. Kuching, Malaysia (15 minutes).
Markowitz, EH, M Frisk, S Sagarese, and JA Nye. Modeling Environmentally Driven Distribution Shifts in Regional Ocean Model Systems for the Demersal, Migratory, Commercially Important Summer Flounder.
ICES ASC, September 2018. Hamburg, Germany.
American Fisheries Society’s National Meeting, August 2018. Atlantic City, NJ.
International Marine Conservation Congress, June 2018. Kuching, Malaysia.